hmmm I think I know

for the battery save, you need .eep files (eeprom); .mpk for the mamory card saves.
Also you may want to use the save states.
edit: hmm, i was trying here now. it depends the game you want. some games uses the .fla (flashram), others .sra (sram), .eep and .mpk . the correct thing is to you get all these types.
for ocarina, you'll just need the .sra one
